KpATCC43816 Protein target profile

MATE efflux family protein

Accession: VK055_3041

Gene: AIK81626.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GGV5
Length 438
Pocket druggability (P2Rank · AlphaFold DB model) 0.893
Direct ligand evidence 0 53 total records
Functional annotation 0 EC 5 GO
Target summary

Strong target candidate with converging metabolic, structural and chemical evidence.

Automated synthesis of the evidence currently loaded. Review the underlying records before prioritizing this protein.

Terms and data sources used on this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal Target pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Prioritization evidence

Selectivity, essentiality, structural confidence, conservation, and predicted binding-site evidence.

Off-target risk

Human off-target
No hit
Gut microbiome similarity
1.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
24.621 Higher values support similarity to known essential genes.

Structure confidence

ColabFold pLDDT
91.53 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

P2Rank's binding-site probability is the primary druggability signal shown across the app; FPocket's druggability score is shown alongside it for comparison. Both estimate small-molecule pocket quality after applying the curated structure priority — neither is experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

Druggability (P2Rank) 0.893
Structure A0A0H3GGV5
Pocket Pocket 1
Druggability (FPocket) 0.788
Structure A0A0H3GGV5
Pocket Pocket 28
ColabFold model
P2Rank 0.87 · Pocket 1
FPocket 0.77 · Pocket 23
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 77 / 4744 genomes with a hit
Prevalence 1.6%

Metabolic context

Reactions catalyzed, pathway membership, and centrality in the genome-scale metabolic network.

This protein is not associated with the imported metabolic network for this genome.

Browse the genome's metabolic network

Imported from KpATCC43816.sbml · 2026-07-09

Sequence

Primary amino-acid sequence viewer.

MLLNAADKALWRLALPMIFSNITVPLLGLVDTAVIGHLDSPVYLGGVAVGATATSFLFMLLLFLRMSTTGLTAQAWGAKDPQRLARALVQPLALALGAGVLIILLRLPLIDLALHIVGGSEAVLEQARRFLEIRWLSAPASLANLVLLGWLLGVQYARAPVILLVVGNLLNIVLDLWLVMGLRMNVQGAALATVTAEYATLIIGLLMAKRVLTLRGVSLAMLKNAWRGDLRRLLALNRDIMLRSLLLQLCFGALTVFGARLGSDIVAVNAVLMTMLTFTAYALDGFAYAVEAHSGQAYGARDGSQLLEVWRAACRQSGMVALAFALIYSLAGQYIIALLTSLPSLQQLADRYLIWQTILPVVGVWCYLLDGMFIGATRGAEMRNSMAVAAAGFAVTLLTLPVLGNHGLWLALAVFLALRGLSLALIWRRHWRRGTWFS

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

5
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0042910 Enables the directed movement of a xenobiotic from one side of a membrane to the other. A xenobiotic is a compound foreign to the organism exposed to it. It may be synthesized by another organism (like ampicilin) or it can be a synthetic chemical.
  • GO:0055085 The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other.
  • GO:0015297 Enables the active transport of a solute across a membrane by a mechanism whereby two or more species are transported in opposite directions in a tightly coupled process not directly linked to a form of energy other than chemiosmotic energy. The reaction is: solute A(out) + solute B(in) = solute A(in) + solute B(out).
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

47 records
Show feature table
Start End DB Term Name
260 264 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
88 110 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
7 436 PANTHER PTHR42893 PROTEIN DETOXIFICATION 44, CHLOROPLASTIC-RELATED
7 436 InterPro IPR044644 Multi antimicrobial extrusion protein DinF-like
7 429 CDD cd13136 MATE_DinF_like
7 429 InterPro IPR044644 Multi antimicrobial extrusion protein DinF-like
209 239 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
265 283 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
42 64 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
320 342 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
240 259 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
352 374 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
13 35 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
409 427 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
240 262 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
45 67 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
130 152 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
84 105 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
155 160 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
341 351 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
181 185 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
159 181 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
31 41 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
186 208 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
266 288 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
65 83 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
9 30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
352 374 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
106 132 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
16 409 NCBIfam TIGR00797 MATE family efflux transporter
16 409 InterPro IPR002528 Multi antimicrobial extrusion protein
387 404 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
186 208 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
161 180 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
428 438 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
284 319 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
16 176 Pfam PF01554 MatE
16 176 InterPro IPR002528 Multi antimicrobial extrusion protein
240 392 Pfam PF01554 MatE
240 392 InterPro IPR002528 Multi antimicrobial extrusion protein
320 340 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
386 403 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
133 154 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
404 408 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
408 427 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
375 385 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.

3D structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

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Pocket score High Medium Low
How colors and pocket overlays are used
Uniform protein color marks the displayed model as a single molecular object.
Experimental PDB structures may be colored by chain to distinguish subunits or copies present in the file.
Pocket colors and alpha spheres are evidence overlays for predicted binding cavities; they are not alternative protein chains.
'Alpha spheres' is FPocket's own cavity-shape geometry, imported when available and aligned with the loaded structure.
'Pocket atoms'/'Predicted site atoms' show the pocket's residue atoms instead: P2Rank reports residues rather than alpha spheres, and FPocket falls back to this when alpha-sphere geometry is unavailable or doesn't align.
'No pocket geometry' means neither alpha spheres nor residue-position data could be found for that pocket; the layer just highlights the same residues as 'Nearby residues'.
Pocket details Inspect a specific pocket, or open the full viewer

Binding pockets · P2Rank

Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Pocket 1 P2Rank #1
0.893
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Surrounding area
Pocket 2 P2Rank #2
0.89
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Surrounding area
Pocket 3 P2Rank #3
0.138
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Surrounding area
Pocket 4 P2Rank #4
0.127
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Surrounding area
Pocket 5 P2Rank #5
0.059
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Surrounding area

Binding pockets · FPocket

Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Pocket 1 FPocket #28
0.788
Show in viewer
Surrounding area
All structural evidence 0 experimental · 2 predicted

Structural evidence

0 + 2

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold DB AF_A0A0H3GGV5
AlphaFold DB full sequence Viewing
ColabFold VK055_3041
ColabFold full sequence Loaded

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

53 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 3 records from similar proteins
Structural ligands 3 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
BNU PDB via homolog 380.2 Da · LogP 1.89 · TPSA 74.6 Open detail RCSB PDB
CXE PDB via homolog Detail RCSB PDB
OLC PDB via homolog Detail RCSB PDB
ZINC100014200 ZINC proposed compound · Tanimoto 1.000 Detail ZINC
ZINC100070166 ZINC proposed compound · Tanimoto 1.000 Detail ZINC

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
BNU RCSB PDB Q8U2X0 380.2 Da LogP 1.89 TPSA 74.6 ✓ Ro5 ✓ Clean CCN1C=C(C(=O)c2c1cc(c(c2)Br)N3CCNCC3)C(=O)O
CXE RCSB PDB Q8U2X0 378.6 Da LogP 3.20 TPSA 66.4 ✓ Ro5 ✓ Clean CCCCCCCCCCOCCOCCOCCOCCOCCO
OLC RCSB PDB Q8U2X0 356.5 Da LogP 4.92 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCCCC\C=C/CCCCCCCC(=O)OC[C@@H](CO)O

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.